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<title>Class: Ensembl::Core::AssemblyException</title>
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    <div id="content"><h1>Class: Ensembl::Core::AssemblyException
  
  
  
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    <dt class="r1">Inherits:</dt>
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      <span class="inheritName"><span class='object_link'><a href="DBConnection.html" title="Ensembl::Core::DBConnection (class)">DBConnection</a></span></span>
      
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          <li>Object</li>
          
            <li class="next">ActiveRecord::Base</li>
          
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    <dt class="r1 last">Defined in:</dt>
    <dd class="r1 last">lib/ensembl/core/activerecord.rb</dd>
  
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<h2>Overview</h2><div class="docstring">
  <div class="discussion">
    <p>
The AssemblyException class describes the exceptions in to AssemblyLink.
Most notably, this concerns the allosomes. In human, for example, only the
part of the Y chromosome that is different from X is covered in the
assembly table. Therefore, the sequence of the tip and end of the Y
chromosome are not stored in the database, but fetched from the X
chromosome. The assembly_exception table contain the information on which
bits are the same.
</p>
<p>
This class uses ActiveRecord to access data in the Ensembl database. See
the general documentation of the Ensembl module for more information on
what this means and what methods are available.
</p>
<p>
This class should normally not be used directly by the user.
</p>


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  <h2>Method Summary</h2>
  
  <h3 class="inherited">Methods included from <span class='object_link'><a href="Sliceable.html" title="Ensembl::Core::Sliceable (module)">Sliceable</a></span></h3>
  <p class="inherited"><span class='object_link'><a href="Sliceable.html#length-instance_method" title="Ensembl::Core::Sliceable#length (method)">#length</a></span>, <span class='object_link'><a href="Sliceable.html#project-instance_method" title="Ensembl::Core::Sliceable#project (method)">#project</a></span>, <span class='object_link'><a href="Sliceable.html#seq-instance_method" title="Ensembl::Core::Sliceable#seq (method)">#seq</a></span>, <span class='object_link'><a href="Sliceable.html#slice-instance_method" title="Ensembl::Core::Sliceable#slice (method)">#slice</a></span>, <span class='object_link'><a href="Sliceable.html#start-instance_method" title="Ensembl::Core::Sliceable#start (method)">#start</a></span>, <span class='object_link'><a href="Sliceable.html#stop-instance_method" title="Ensembl::Core::Sliceable#stop (method)">#stop</a></span>, <span class='object_link'><a href="Sliceable.html#strand-instance_method" title="Ensembl::Core::Sliceable#strand (method)">#strand</a></span>, <span class='object_link'><a href="Sliceable.html#transform-instance_method" title="Ensembl::Core::Sliceable#transform (method)">#transform</a></span></p>

  
  
  
  
  
  
  
  <h3 class="inherited">Methods inherited from <span class='object_link'><a href="DBConnection.html" title="Ensembl::Core::DBConnection (class)">DBConnection</a></span></h3>
  <p class="inherited"><span class='object_link'><a href="DBConnection.html#connect-class_method" title="Ensembl::Core::DBConnection.connect (method)">connect</a></span>, <span class='object_link'><a href="DBConnection.html#ensemblgenomes_connect-class_method" title="Ensembl::Core::DBConnection.ensemblgenomes_connect (method)">ensemblgenomes_connect</a></span></p>

  
  
  
  
  
  
  
  <h3 class="inherited">Methods inherited from <span class='object_link'><a href="../DBRegistry/Base.html" title="Ensembl::DBRegistry::Base (class)">DBRegistry::Base</a></span></h3>
  <p class="inherited"><span class='object_link'><a href="../DBRegistry/Base.html#generic_connect-class_method" title="Ensembl::DBRegistry::Base.generic_connect (method)">generic_connect</a></span>, <span class='object_link'><a href="../DBRegistry/Base.html#get_info-class_method" title="Ensembl::DBRegistry::Base.get_info (method)">get_info</a></span>, <span class='object_link'><a href="../DBRegistry/Base.html#get_name_from_db-class_method" title="Ensembl::DBRegistry::Base.get_name_from_db (method)">get_name_from_db</a></span></p>

  

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